Variant report

Variant	rs540260379
Chromosome Location	chr9:116414661-116414662
allele	-/A
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:116224389..116227414-chr9:116412116..116415236,3	MCF-7	breast:
2	chr9:116172481..116174769-chr9:116413541..116415745,2	MCF-7	breast:
3	chr9:116356338..116358088-chr9:116413316..116415073,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000138835	Chromatin interaction
ENSG00000148229	Chromatin interaction
ENSG00000157653	Chromatin interaction

Extended variants
information (count: 6 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530949	chr9:115821128-116487796	Flanking Active TSS Enhancers Active TSS Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
2	nsv893748	chr9:116308709-116421786	Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv430093	chr9:116330446-117325446	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	165 gene(s)	inside rSNPs	diseases
4	nsv893749	chr9:116378759-116439749	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv466512	chr9:116413751-116446881	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv615220	chr9:116413751-116446881	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:116410400-116415600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr9:116410800-116414800	Weak transcription	Fetal Intestine Large	intestine
3	chr9:116411000-116415000	Weak transcription	Fetal Intestine Small	intestine
4	chr9:116411000-116416200	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr9:116411200-116415400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr9:116411400-116415400	Enhancers	Osteobl	bone
7	chr9:116411400-116416600	Weak transcription	Adipose Nuclei	Adipose
8	chr9:116411600-116420000	Weak transcription	Fetal Brain Female	brain
9	chr9:116411800-116417800	Enhancers	Liver	Liver
10	chr9:116412000-116414800	Weak transcription	Stomach Smooth Muscle	stomach
11	chr9:116412000-116415000	Weak transcription	Right Atrium	heart
12	chr9:116412000-116415000	Weak transcription	Right Ventricle	heart
13	chr9:116412000-116416400	Weak transcription	Fetal Lung	lung
14	chr9:116412200-116415400	Enhancers	Muscle Satellite Cultured Cells	--
15	chr9:116412200-116417200	Weak transcription	Brain Anterior Caudate	brain
16	chr9:116412200-116417400	Weak transcription	Brain Angular Gyrus	brain
17	chr9:116412200-116417400	Weak transcription	Brain Substantia Nigra	brain
18	chr9:116412200-116417600	Weak transcription	Brain Hippocampus Middle	brain
19	chr9:116412400-116417200	Weak transcription	Brain Cingulate Gyrus	brain
20	chr9:116412600-116417400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr9:116412800-116414800	Weak transcription	HMEC	breast
22	chr9:116412800-116416600	Weak transcription	Colon Smooth Muscle	Colon
23	chr9:116412800-116420000	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr9:116413200-116414800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr9:116413200-116415000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr9:116413200-116416200	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr9:116413200-116416600	Weak transcription	Spleen	Spleen
28	chr9:116413400-116414800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
29	chr9:116413400-116414800	Weak transcription	Fetal Heart	heart
30	chr9:116413400-116415000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
31	chr9:116413400-116415000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr9:116413400-116415200	Enhancers	Fetal Muscle Trunk	muscle
33	chr9:116413400-116416200	Weak transcription	Left Ventricle	heart
34	chr9:116413400-116416600	Weak transcription	Ovary	ovary
35	chr9:116413400-116416600	Weak transcription	NHLF	lung
36	chr9:116413400-116417200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr9:116413400-116417200	Weak transcription	NH-A	brain
38	chr9:116413400-116419000	Enhancers	HepG2	liver
39	chr9:116413400-116419800	Weak transcription	Fetal Kidney	kidney
40	chr9:116413400-116420000	Weak transcription	Gastric	stomach
41	chr9:116413600-116414800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr9:116413600-116414800	Weak transcription	Fetal Muscle Leg	muscle
43	chr9:116413600-116415000	Weak transcription	A549	lung
44	chr9:116413600-116416200	Weak transcription	Fetal Stomach	stomach
45	chr9:116413600-116417400	Weak transcription	H9 Cell Line	embryonic stem cell
46	chr9:116413800-116414800	Weak transcription	Cortex derived primary cultured neurospheres	brain
47	chr9:116413800-116415000	Weak transcription	HUVEC	blood vessel
48	chr9:116413800-116416800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr9:116413800-116417000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
50	chr9:116413800-116417400	Weak transcription	HUES48 Cell Line	embryonic stem cell

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